Figure S1 shows the two-dimensional embedding of diffusion variables using the `potential of heat-diffusion for affinity-based transition embedding' (PHATE) method (also see Fig. 3C in the main text) of Moon et al. [1]}. Coloring the points (genomes) by diffusion variable entries shows how the method captures both intricate (Figs. S1A, S1C) and global scale (Fig. S1B) structures in the metabolic trait data in only two dimensions.
